Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 374 of 444
Found at i:108699645 original size:27 final size:27
Alignment explanation
Indices: 108699588--108699802 Score: 243
Period size: 27 Copynumber: 8.0 Consensus size: 27
108699578 CGACTTGTAA
* ** *
108699588 AATTACCAAAATACCCCTAGT-TCGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
108699615 AATTATCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
108699642 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
108699669 AGTTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
108699696 AAATACCGAAATAACCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
108699723 AATTACCAAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
108699750 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
108699777 AATTACTGAGATACCCTTGTGGGGTA
1 AATTACCGAAATACCCCTGTAGGGTA
108699803 AAATGACTGT
Statistics
Matches: 159, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 2 0.01
27 157 0.99
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:108699646 original size:54 final size:54
Alignment explanation
Indices: 108699615--108699806 Score: 269
Period size: 54 Copynumber: 3.6 Consensus size: 54
108699605 TAGTTCGTAA
* * * *
108699615 AATTATCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * *
108699669 AGTTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATAACCCTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
*
108699723 AATTACCAAAATACCCTTGTAAGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
** * *
108699777 AATTACTGAGATACCCTTGTGGGGTA-AAAT
1 AATTACCAAAATACCCTTGTAGGGTAGAAAT
108699807 GACTGTTTTG
Statistics
Matches: 122, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
53 4 0.03
54 118 0.97
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:108709536 original size:50 final size:49
Alignment explanation
Indices: 108709379--108709695 Score: 177
Period size: 50 Copynumber: 6.6 Consensus size: 49
108709369 TTAAGTTGCC
* * * *
108709379 GATGCCATGTCCCAGACATGGTCTTACACT-G-GCT-ATCCTCATCGAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACTCAT-GTA--T
*
108709428 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACTTATGTGAT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACTCATGT-AT
* * *
108709478 GATTCCATGTCCTAGACGTGGTCTTACACTAGCTCTTGCATA-TCCATGT-T
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-T-CATACT-CATGTAT
* * * **
108709528 TATGCCATGTCCCAGACATGATCTTACACT-GACATGTC-T-CGT-A-G-CC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-C-TCTCATAC-TCATGTAT
* ***
108709574 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCAAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATACTCATGTAT
* * * * * **
108709620 GATG-CATGTCCCGGACAT-ATCTTACACTGGCACTCGT-CTCAATG-CC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACTC-ATGTAT
108709666 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
108709696 GGCACACAAA
Statistics
Matches: 220, Mismatches: 26, Indels: 45
0.76 0.09 0.15
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 13 0.06
45 16 0.07
46 45 0.20
47 17 0.08
48 10 0.05
49 33 0.15
50 61 0.28
51 6 0.03
52 15 0.07
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATACTCATGTAT
Found at i:108709631 original size:46 final size:47
Alignment explanation
Indices: 108709376--108709695 Score: 223
Period size: 46 Copynumber: 6.7 Consensus size: 47
108709366 GGGTTAAGTT
* *
108709376 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TATCCTCATCGAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTA-CATC-TC-AA
* *
108709425 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATACTTAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACAT-CTCAA
* * * * * *
108709473 G-TGATGATTCCATGTCCTAGACGTGGTCTTACACTAGCTCTTGCATATCCAT
1 GCCGATG---CCATGTCCCAGACATGGTCTTACACTAG--CTTACATCT-CAA
*** * *
108709525 GTTTATGCCATGTCCCAGACATGATCTTACACT-G---ACATGTCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACA--TCTC-AA
108709571 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAA
* * * * *
108709616 GGCCGATG-CATGTCCCGGACAT-ATCTTACACTGGCACT-CGTCTCAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TTACATCTCAA
108709662 TGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACT
108709696 GGCACACAAA
Statistics
Matches: 219, Mismatches: 30, Indels: 45
0.74 0.10 0.15
Matches are distributed among these distances:
44 11 0.05
45 17 0.08
46 55 0.25
47 18 0.08
48 14 0.06
49 39 0.18
50 50 0.23
51 3 0.01
52 8 0.04
53 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAA
Found at i:108710403 original size:12 final size:12
Alignment explanation
Indices: 108710386--108710410 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108710376 CGAAAATGTA
108710386 AAAATCATCAAG
1 AAAATCATCAAG
108710398 AAAATCATCAAG
1 AAAATCATCAAG
108710410 A
1 A
108710411 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:108712864 original size:15 final size:15
Alignment explanation
Indices: 108712845--108712884 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
108712835 ATGAGTCTTC
*
108712845 AAAAATAAATAGAAAT
1 AAAAATAAAGA-AAAT
*
108712861 AAAAGTAAAGAAAAT
1 AAAAATAAAGAAAAT
108712876 AAAAATAAA
1 AAAAATAAA
108712885 ATGAGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (15 bp):
AAAAATAAAGAAAAT
Found at i:108715581 original size:48 final size:48
Alignment explanation
Indices: 108715510--108715606 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
108715500 TCTCAATGGC
108715510 TTCAATTTTAGATTTATCGACCTTAATCCCTTTACTAGAAATTTTATG
1 TTCAATTTTAGATTTATCGACCTTAATCCCTTTACTAGAAATTTTATG
108715558 TTCAATTTTAGATTTATCGACCTTAATCCCTTTACTAGAAATTTTATG
1 TTCAATTTTAGATTTATCGACCTTAATCCCTTTACTAGAAATTTTATG
108715606 T
1 T
108715607 CCTAACACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.46
Consensus pattern (48 bp):
TTCAATTTTAGATTTATCGACCTTAATCCCTTTACTAGAAATTTTATG
Found at i:108722770 original size:2 final size:2
Alignment explanation
Indices: 108722763--108722802 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
108722753 TTCTTGTGGT
108722763 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108722803 AATGAAACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:108725978 original size:46 final size:44
Alignment explanation
Indices: 108725874--108725981 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
108725864 TGTCTTTGAC
** * * *
108725874 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
108725918 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
108725964 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
108725982 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:108740557 original size:19 final size:19
Alignment explanation
Indices: 108740534--108740576 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
108740524 AAAATATTCA
* *
108740534 AAAAATAAAATAATAATTAT
1 AAAACTAAAA-AATAATAAT
*
108740554 AAAACTTAAAAATAATAAT
1 AAAACTAAAAAATAATAAT
108740573 AAAA
1 AAAA
108740577 AAATTCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAACTAAAAAATAATAAT
Found at i:108740586 original size:22 final size:22
Alignment explanation
Indices: 108740533--108740586 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
108740523 TAAAATATTC
108740533 AAAAAA-T-AAAATAATAATTA
1 AAAAAATTAAAAATAATAATTA
* *
108740553 TAAAACTTAAAAATAATAA-TA
1 AAAAAATTAAAAATAATAATTA
*
108740574 AAAAAATTCAAAA
1 AAAAAATTAAAAA
108740587 CATGAAACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 4 0.15
21 13 0.48
22 10 0.37
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAAAATTAAAAATAATAATTA
Found at i:108745496 original size:18 final size:18
Alignment explanation
Indices: 108745473--108745512 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
108745463 AGATGACAAT
* *
108745473 GAAGATATAGTTGAGAAA
1 GAAGATACAGTCGAGAAA
*
108745491 GAAGATGCAGTCGAGAAA
1 GAAGATACAGTCGAGAAA
108745509 GAAG
1 GAAG
108745513 GGACAATAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.33, T:0.15
Consensus pattern (18 bp):
GAAGATACAGTCGAGAAA
Found at i:108748068 original size:45 final size:44
Alignment explanation
Indices: 108747966--108748080 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 44
108747956 TGGCTTGAAG
* * *
108747966 GAAATGATTAAGACCGTAGTTGAAAGACACTATGGCACTATACC
1 GAAATGAATAAGACCATAGTTGAAAGACACTATGACACTATACC
* * *
108748010 GAAAATAAATAAGACTATAGTTGAAAGACACTATGACA-TCGTACC
1 G-AAATGAATAAGACCATAGTTGAAAGACACTATGACACT-ATACC
* *
108748055 AGAAATGAGTAAGACCATAGCTGAAA
1 -GAAATGAATAAGACCATAGTTGAAA
108748081 AATGTTATGA
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
44 2 0.03
45 55 0.95
46 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (44 bp):
GAAATGAATAAGACCATAGTTGAAAGACACTATGACACTATACC
Found at i:108748110 original size:45 final size:45
Alignment explanation
Indices: 108748062--108748230 Score: 212
Period size: 45 Copynumber: 3.8 Consensus size: 45
108748052 ACCAGAAATG
* * * *
108748062 AGTAAGACCATAGCTGAAAAATGTTATGACATCAAAATTCTATCG
1 AGTAAGACCATAGCTGAAAGACGTTATGACATCAAGATTCTATCA
* * *
108748107 AGTAAGACCATAGCTGAAAGACGTTATGACATCACGATCCTATTA
1 AGTAAGACCATAGCTGAAAGACGTTATGACATCAAGATTCTATCA
* * * *
108748152 AGTAAGACGATAGCTGAAAGACGTTACGGCATCATGATTCTATCA
1 AGTAAGACCATAGCTGAAAGACGTTATGACATCAAGATTCTATCA
* * *
108748197 AGAAAGACCATAGCTGAAAGATGTTATGGCATCA
1 AGTAAGACCATAGCTGAAAGACGTTATGACATCA
108748231 CGAATCAAAG
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 107 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACGTTATGACATCAAGATTCTATCA
Found at i:108748125 original size:90 final size:89
Alignment explanation
Indices: 108748019--108748217 Score: 204
Period size: 90 Copynumber: 2.2 Consensus size: 89
108748009 CGAAAATAAA
* * *
108748019 TAAGACTATAGTTGAAAGACACTATGACAT-CG-TACCAGAAATGAGTAAGACCATAGCTGAAAA
1 TAAGACCATAGCTGAAAGACACTATGACATACGAT-CC--AAATAAGTAAGACCATAGCTGAAAA
* * *
108748082 ATGTTATGACATCAAAATTCTATCGAG
63 ACGTTACGACATCAAAATTCTATCAAG
** * * * *
108748109 TAAGACCATAGCTGAAAGACGTTATGACATCACGATCCTATTAAGTAAGACGATAGCTGAAAGAC
1 TAAGACCATAGCTGAAAGACACTATGACAT-ACGATCCAAATAAGTAAGACCATAGCTGAAAAAC
* **
108748174 GTTACGGCATCATGATTCTATCAAG
65 GTTACGACATCAAAATTCTATCAAG
*
108748199 AAAGACCATAGCTGAAAGA
1 TAAGACCATAGCTGAAAGA
108748218 TGTTATGGCA
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
90 85 0.94
92 4 0.04
93 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (89 bp):
TAAGACCATAGCTGAAAGACACTATGACATACGATCCAAATAAGTAAGACCATAGCTGAAAAACG
TTACGACATCAAAATTCTATCAAG
Found at i:108748223 original size:90 final size:90
Alignment explanation
Indices: 108748062--108748233 Score: 245
Period size: 90 Copynumber: 1.9 Consensus size: 90
108748052 ACCAGAAATG
* * * *
108748062 AGTAAGACCATAGCTGAAAAATGTTATGACATCAAAATTCTATCGAGTAAGACCATAGCTGAAAG
1 AGTAAGACCATAGCTGAAAAACGTTACGACATCAAAATTCTATCAAGAAAGACCATAGCTGAAAG
108748127 ACGTTATGACATCACGATCCTATTA
66 ACGTTATGACATCACGATCCTATTA
* * * **
108748152 AGTAAGACGATAGCTGAAAGACGTTACGGCATCATGATTCTATCAAGAAAGACCATAGCTGAAAG
1 AGTAAGACCATAGCTGAAAAACGTTACGACATCAAAATTCTATCAAGAAAGACCATAGCTGAAAG
* *
108748217 ATGTTATGGCATCACGA
66 ACGTTATGACATCACGA
108748234 ATCAAAGAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (90 bp):
AGTAAGACCATAGCTGAAAAACGTTACGACATCAAAATTCTATCAAGAAAGACCATAGCTGAAAG
ACGTTATGACATCACGATCCTATTA
Found at i:108748260 original size:90 final size:90
Alignment explanation
Indices: 108748065--108748263 Score: 213
Period size: 90 Copynumber: 2.2 Consensus size: 90
108748055 AGAAATGAGT
* * * * * ** * *
108748065 AAGACCATAGCTGAAAAATGTTATGACATCAAAATTCTATCGAGTAAGACCATAGCTGAAAGACG
1 AAGACGATAGCTGAAAGACGTTACGGCATCATGATTCTATCAAGAAAGACCATAGCTGAAAGACG
* ** **
108748130 TTATGACATCACGATCCTATTAAGT
66 TTATGACATCACGATCCAAAGAAAC
*
108748155 AAGACGATAGCTGAAAGACGTTACGGCATCATGATTCTATCAAGAAAGACCATAGCTGAAAGATG
1 AAGACGATAGCTGAAAGACGTTACGGCATCATGATTCTATCAAGAAAGACCATAGCTGAAAGACG
*
108748220 TTATGGCATCACGAAT-CAAAGAAAC
66 TTATGACATCACG-ATCCAAAGAAAC
*
108748245 AAGATC-ATAGTTGAAAGAC
1 AAGA-CGATAGCTGAAAGAC
108748264 ACTATAGCAA
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
90 87 0.97
91 3 0.03
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (90 bp):
AAGACGATAGCTGAAAGACGTTACGGCATCATGATTCTATCAAGAAAGACCATAGCTGAAAGACG
TTATGACATCACGATCCAAAGAAAC
Found at i:108748311 original size:46 final size:45
Alignment explanation
Indices: 108748245--108748359 Score: 133
Period size: 45 Copynumber: 2.5 Consensus size: 45
108748235 TCAAAGAAAC
* * * *
108748245 AAGATCATAGTTGAAAGACACTATAGCAACACGA-CAGAAAATGAAT
1 AAGACCATGGTTGAAAGACACTATAGCAACAAGATCAG--AATAAAT
* * * *
108748291 AAGACCATGGTTTAAAGACACTATGGCATCAAGATTAGAATAAAT
1 AAGACCATGGTTGAAAGACACTATAGCAACAAGATCAGAATAAAT
108748336 AAGACCATGGTTGAAAGACACTAT
1 AAGACCATGGTTGAAAGACACTAT
108748360 GGCACTCTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
45 29 0.49
46 28 0.47
47 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (45 bp):
AAGACCATGGTTGAAAGACACTATAGCAACAAGATCAGAATAAAT
Found at i:108751303 original size:17 final size:17
Alignment explanation
Indices: 108751277--108751366 Score: 76
Period size: 17 Copynumber: 5.2 Consensus size: 17
108751267 ATCGCAAGAT
* *
108751277 TGCGAACTCACCAAATG
1 TGCGAGCTCACCAAATC
*
108751294 TGCGAGCTCACCCAAAAC
1 TGCGAGCTCA-CCAAATC
*
108751312 TGCGAGCTCATCAAGA-C
1 TGCGAGCTCACCAA-ATC
* *
108751329 TGCGAGCTCTCC-AATAG
1 TGCGAGCTCACCAAAT-C
*
108751346 TGCGAGCTCACCAAAGC
1 TGCGAGCTCACCAAATC
108751363 TGCG
1 TGCG
108751367 TAGTCTGGGA
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
15 1 0.02
16 1 0.02
17 38 0.66
18 18 0.31
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.17
Consensus pattern (17 bp):
TGCGAGCTCACCAAATC
Found at i:108753563 original size:2 final size:2
Alignment explanation
Indices: 108753556--108753580 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
108753546 CAATACAATT
108753556 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
108753581 GCAATTATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108755025 original size:4 final size:4
Alignment explanation
Indices: 108755018--108755057 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
108755008 TCATCTACAT
* * *
108755018 ATAC ATAC ATAC ATAC ATAC ATAC GTAC GTAC GTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
108755058 GTATGTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:108755058 original size:16 final size:16
Alignment explanation
Indices: 108755035--108755100 Score: 73
Period size: 16 Copynumber: 4.1 Consensus size: 16
108755025 CATACATACA
*
108755035 TACATACGTACGTACG
1 TACATACGTATGTACG
*
108755051 TACATACGTATGTACA
1 TACATACGTATGTACG
108755067 TA-A-ACGTATATGTACG
1 TACATACG--TATGTACG
*
108755083 TACGTACGTATGTACG
1 TACATACGTATGTACG
108755099 TA
1 TA
108755101 TGTATGTATG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 3 0.07
15 1 0.02
16 35 0.83
18 3 0.07
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (16 bp):
TACATACGTATGTACG
Found at i:108755105 original size:12 final size:12
Alignment explanation
Indices: 108755075--108755113 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
108755065 CATAAACGTA
*
108755075 TATGTACGTACG
1 TATGTATGTACG
*
108755087 TACGTATGTACG
1 TATGTATGTACG
*
108755099 TATGTATGTATG
1 TATGTATGTACG
108755111 TAT
1 TAT
108755114 ATAGGAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (12 bp):
TATGTATGTACG
Found at i:108755109 original size:16 final size:16
Alignment explanation
Indices: 108755039--108755112 Score: 71
Period size: 16 Copynumber: 4.6 Consensus size: 16
108755029 CATACATACA
* *
108755039 TACGTACGTACGTACA
1 TACGTATGTACGTACG
*
108755055 TACGTATGTACATAAACG
1 TACGTATGTACGT--ACG
108755073 TA--TATGTACGTACG
1 TACGTATGTACGTACG
*
108755087 TACGTATGTACGTATG
1 TACGTATGTACGTACG
*
108755103 TATGTATGTA
1 TACGTATGTA
108755113 TATAGGAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
14 5 0.10
16 39 0.81
18 4 0.08
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (16 bp):
TACGTATGTACGTACG
Found at i:108755113 original size:8 final size:8
Alignment explanation
Indices: 108755075--108755112 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
108755065 CATAAACGTA
108755075 TATGTACG
1 TATGTACG
*
108755083 TACGTACG
1 TATGTACG
108755091 TATGTACG
1 TATGTACG
*
108755099 TATGTATG
1 TATGTACG
108755107 TATGTA
1 TATGTA
108755113 TATAGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (8 bp):
TATGTACG
Found at i:108763316 original size:26 final size:26
Alignment explanation
Indices: 108763267--108763317 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
108763257 CACTTACTGC
* *
108763267 TACTGGCAGCTACGCTGCGTTATTGT
1 TACTGGCAGCTACGCTACGATATTGT
**
108763293 TACTGGCAGCTGTGCTACGATATTG
1 TACTGGCAGCTACGCTACGATATTG
108763318 GTGTGCTGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (26 bp):
TACTGGCAGCTACGCTACGATATTGT
Found at i:108767423 original size:21 final size:21
Alignment explanation
Indices: 108767394--108767605 Score: 144
Period size: 21 Copynumber: 10.1 Consensus size: 21
108767384 TAGTGTTTTA
* * *
108767394 CTTTCTGTTTAGCTTTTTCGAG
1 CTTT-TGTTCAGCTCTTACGAG
108767416 CTTTTGTTCAGCTCTTACGAG
1 CTTTTGTTCAGCTCTTACGAG
* * *
108767437 CTTCTGTTCAACTCTTACAAG
1 CTTTTGTTCAGCTCTTACGAG
* * * * *
108767458 CATCTATTCAACTCTTATGAG
1 CTTTTGTTCAGCTCTTACGAG
* * *
108767479 ATTCTGTTAAGCTCTTACGAG
1 CTTTTGTTCAGCTCTTACGAG
* * *
108767500 CTTCTGTTCAACTCTTATGAG
1 CTTTTGTTCAGCTCTTACGAG
* * *
108767521 ATTCTGTTAAGCTCTTACGAG
1 CTTTTGTTCAGCTCTTACGAG
* * **
108767542 CTTCTGTTCAACTCTTATAAG
1 CTTTTGTTCAGCTCTTACGAG
*
108767563 -TTTCTGTTCAGCTCTTATGAG
1 CTTT-TGTTCAGCTCTTACGAG
108767584 -TTTCTGTTCAGCT-TT-CGAG
1 CTTT-TGTTCAGCTCTTACGAG
108767603 CTT
1 CTT
108767606 CTTTTGGCAT
Statistics
Matches: 155, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
19 3 0.02
20 6 0.04
21 142 0.92
22 4 0.03
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (21 bp):
CTTTTGTTCAGCTCTTACGAG
Found at i:108767473 original size:42 final size:42
Alignment explanation
Indices: 108767396--108767593 Score: 245
Period size: 42 Copynumber: 4.7 Consensus size: 42
108767386 GTGTTTTACT
* * * * * * *
108767396 TTCTGTTTAGCTTTTTCGAGCTTTTGTTCAGCTCTTACGAGC
1 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGA
* * *
108767438 TTCTGTTCAA-CTCTTACAAGCATCTATTCAACTCTTATGAGA
1 TTCTGTT-AAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGA
108767480 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGA
1 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGA
* *
108767522 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATAAGT
1 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGA
* * *
108767564 TTCTGTTCAGCTCTTATGAGTTTCTGTTCA
1 TTCTGTTAAGCTCTTACGAGCTTCTGTTCA
108767594 GCTTTCGAGC
Statistics
Matches: 136, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.01
42 133 0.98
43 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (42 bp):
TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGA
Found at i:108767536 original size:63 final size:63
Alignment explanation
Indices: 108767396--108767596 Score: 201
Period size: 63 Copynumber: 3.2 Consensus size: 63
108767386 GTGTTTTACT
* * * * * * **
108767396 TTCTGTTTAGCTTTTTCGAGCTTTTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTACAAGCA
1 TTCTGTTAAGCTCTTACGAGATTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG-A
* *
108767460 -TCTATTCAA-CTCTTATGAGATTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGA
1 TTCTGTT-AAGCTCTTACGAGATTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGA
* ** * * *
108767522 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAA-CTCTTATAAGTTTCTGTTCAGCTCTTATGAGT
1 TTCTGTTAAGCTCTTACGAGATTCTGTT-AAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGA
*
108767585 TTCTGTTCAGCT
1 TTCTGTTAAGCT
108767597 TTCGAGCTTC
Statistics
Matches: 114, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
62 3 0.03
63 108 0.95
64 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.43
Consensus pattern (63 bp):
TTCTGTTAAGCTCTTACGAGATTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGA
Found at i:108767879 original size:25 final size:25
Alignment explanation
Indices: 108767840--108767889 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
108767830 ATGATGGCAC
**
108767840 ATGATATATTGATATATTGAAATGG
1 ATGATATATTGATATAAAGAAATGG
108767865 ATGATATA-TGTATATAAAGAAATGG
1 ATGATATATTG-ATATAAAGAAATGG
108767890 TAGGAGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (25 bp):
ATGATATATTGATATAAAGAAATGG
Found at i:108782860 original size:58 final size:58
Alignment explanation
Indices: 108782796--108782912 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 58
108782786 TTTGATCTTC
* * *
108782796 TAGAAGGTTTCTTTTTTAAAGAGCTTTGTTTGCCCCAAACTAGAATGATGAAGCTTTT
1 TAGAAGGTTTCCTCTTTAAAGAGATTTGTTTGCCCCAAACTAGAATGATGAAGCTTTT
* *
108782854 TAGAAGGTTTCCTCTTTAAGGAGATTTGTTTGCCCCAAACTAGAATGATGGAGCTTTT
1 TAGAAGGTTTCCTCTTTAAAGAGATTTGTTTGCCCCAAACTAGAATGATGAAGCTTTT
108782912 T
1 T
108782913 CTTCCTTGTG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (58 bp):
TAGAAGGTTTCCTCTTTAAAGAGATTTGTTTGCCCCAAACTAGAATGATGAAGCTTTT
Found at i:108784528 original size:134 final size:131
Alignment explanation
Indices: 108784251--108784702 Score: 467
Period size: 134 Copynumber: 3.4 Consensus size: 131
108784241 AATAGAGTTA
* ***
108784251 CAATCGTAAATC-AGCGAACTCTTAATGAACTGTTCATGATAACAAATCAATGAACTGAAATTGT
1 CAATCGTAAATCGA-C-AACTCTTAATGAATTGTTCATGATCGTAAATCAATGAAC-GAAATTGT
* * * * *
108784315 GATC-ATAAATCAATGAGCTTTAAAATGACAGTTGTAATCGTAAATCAATGGACTGTTTAGGTGG
63 GATCGA-AAATTAACGAGCTTAAAAATGACAGTTGTAATCGTAAATCAATGAACTGTTTAAGTGG
*
108784379 AGTTG
127 AGTAG
* *
108784384 CAATTGTAAATCGACAATCTCTTAATGAATTGTTCATGATCGTAAATCAATGAACGGAAACTGTG
1 CAATCGTAAATCGACAA-CTCTTAATGAATTGTTCATGATCGTAAATCAATGAAC-GAAATTGTG
* * * *
108784449 ATCGAAAATTACCAAGCATAAAAAATGACAGTTGTAATCGTAAATCAACGAACTGTTTAAGTGGA
64 ATCGAAAATTAACGAGC-TTAAAAATGACAGTTGTAATCGTAAATCAATGAACTGTTTAAGTGGA
108784514 GTAG
128 GTAG
* * * ** * *
108784518 CAGTCATAAATTAGTGAACTCTTAATGAATTGTTCATCATCGTAAATCAATGAACTAAAGTTGTG
1 CAATCGTAAA-TCGACAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACGAAA-TTGTG
* * * * * * * *
108784583 GTCGTAAATTAGCGAGCTTTAAAAATGACAGTTGTGATAGTGAATCAGTGAACTATTTAAGTGGA
64 ATCGAAAATTAACGAGC-TTAAAAATGACAGTTGTAATCGTAAATCAATGAACTGTTTAAGTGGA
*
108784648 GTCG
128 GTAG
* * * *
108784652 CAATCGTAGATCGACGAAATCTTAATGAATTGTTCATAATCGTAAACCAAT
1 CAATCGTAAATCGAC-AACTCTTAATGAATTGTTCATGATCGTAAATCAAT
108784703 ACTGAAGTTG
Statistics
Matches: 264, Mismatches: 48, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
132 2 0.01
133 69 0.26
134 189 0.72
135 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (131 bp):
CAATCGTAAATCGACAACTCTTAATGAATTGTTCATGATCGTAAATCAATGAACGAAATTGTGAT
CGAAAATTAACGAGCTTAAAAATGACAGTTGTAATCGTAAATCAATGAACTGTTTAAGTGGAGTA
G
Found at i:108784834 original size:96 final size:96
Alignment explanation
Indices: 108784641--108784820 Score: 272
Period size: 96 Copynumber: 1.9 Consensus size: 96
108784631 TGAACTATTT
* *
108784641 AAGTGGAGTCGCAATCGTAGATCGACGAAATCTTAATGAATTGTTCATAATCGTAAACCAATACT
1 AAGTGGAGTCGCAATCGTAAATCGACGAAATCTTAATGAATTGCTCATAATCGTAAACCAATACT
* *
108784706 GAAGTTGTGATTGTAAATCAACAAACTGTTA
66 GAAGTTATGATCGTAAATCAACAAACTGTTA
* * *
108784737 AAGTGGAGTCGCAATTGTAAATTGACGAAATCTTAATGAATTGCTCATGATCGTAAA-CAATAAA
1 AAGTGGAGTCGCAATCGTAAATCGACGAAATCTTAATGAATTGCTCATAATCGTAAACCAAT--A
108784801 CTGAAGTTATGATCGTAAAT
64 CTGAAGTTATGATCGTAAAT
108784821 TAGAGATCTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
95 4 0.05
96 52 0.69
97 19 0.25
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (96 bp):
AAGTGGAGTCGCAATCGTAAATCGACGAAATCTTAATGAATTGCTCATAATCGTAAACCAATACT
GAAGTTATGATCGTAAATCAACAAACTGTTA
Found at i:108791492 original size:18 final size:18
Alignment explanation
Indices: 108791454--108791488 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
108791444 GTGTGGTTCA
*
108791454 CCCGTGTGGACCCACACG
1 CCCGTGTGGACCAACACG
108791472 CCCGTGTGG-CCAACACG
1 CCCGTGTGGACCAACACG
108791489 GCCCAGTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.17, C:0.43, G:0.29, T:0.11
Consensus pattern (18 bp):
CCCGTGTGGACCAACACG
Found at i:108791702 original size:85 final size:85
Alignment explanation
Indices: 108791548--108791708 Score: 277
Period size: 85 Copynumber: 1.9 Consensus size: 85
108791538 CACAACGGTG
**
108791548 TCCTTCGCGTATGGCCTAGCCTCGTCATTCACACGGCCGTGTACTACCACACGACCTACCACACA
1 TCCTTCGCGTATGGCCTAGCCTCGTCATTCACACGGCCGTGTACTACCACAAAACCTACCACACA
*
108791613 GATGACCACACGCCCGTGTA
66 GATGACAACACGCCCGTGTA
**
108791633 TCCTTCGCGTATGGCCTAGCCTCGTCATTCACACGGCCGTGTACTACCACAAAACCTACCACATG
1 TCCTTCGCGTATGGCCTAGCCTCGTCATTCACACGGCCGTGTACTACCACAAAACCTACCACACA
108791698 GATGACAACAC
66 GATGACAACAC
108791709 TCCCATGTGG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.20
Consensus pattern (85 bp):
TCCTTCGCGTATGGCCTAGCCTCGTCATTCACACGGCCGTGTACTACCACAAAACCTACCACACA
GATGACAACACGCCCGTGTA
Found at i:108823277 original size:51 final size:52
Alignment explanation
Indices: 108823215--108823315 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 52
108823205 ATGTGAAATG
* *
108823215 AAAGAAAATGTGGACTGCTATAAGCAAGAAAAATATTTGACTAGGCTTGGGT
1 AAAGAAAATGTGGACTGCTATAAGCAAGAAAAATACTCGACTAGGCTTGGGT
*
108823267 AAAG-AAATGTGGACTGCTATAAGCAAGATAAATACTCGACTAGGCTTGG
1 AAAGAAAATGTGGACTGCTATAAGCAAGAAAAATACTCGACTAGGCTTGG
108823316 CTAACTTAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 42 0.91
52 4 0.09
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.24
Consensus pattern (52 bp):
AAAGAAAATGTGGACTGCTATAAGCAAGAAAAATACTCGACTAGGCTTGGGT
Found at i:108828647 original size:26 final size:26
Alignment explanation
Indices: 108828617--108828672 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
108828607 CTTCTTGATA
108828617 GGCTCTTTGTGAGCTTTCCGATTA-AT
1 GGCTCTTTGTGAGC-TTCCGATTATAT
*
108828643 GGCTCTTTGTGAGCTTCCTATTATAT
1 GGCTCTTTGTGAGCTTCCGATTATAT
108828669 GGCT
1 GGCT
108828673 TGAAAGAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.43
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCGATTATAT
Found at i:108847860 original size:12 final size:12
Alignment explanation
Indices: 108847845--108847886 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
108847835 TAATATTTTT
108847845 TTATATATTATA
1 TTATATATTATA
*
108847857 TTATATATTATG
1 TTATATATTATA
*
108847869 TTATATTTTTATA
1 TTATA-TATTATA
108847882 TTATA
1 TTATA
108847887 CAATTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TTATATATTATA
Found at i:108847884 original size:30 final size:28
Alignment explanation
Indices: 108847843--108847910 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 28
108847833 CATAATATTT
108847843 TTTTATATATTAT-ATTATATATTATGTTATA
1 TTTT-TATATTATAATT-TATATT-T-TTATA
108847874 TTTTTATATTATACAATTTATATTTTTATA
1 TTTTTATATTAT--AATTTATATTTTTATA
108847904 TTTTTAT
1 TTTTTAT
108847911 TTGTAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
30 20 0.59
31 5 0.15
32 6 0.18
33 3 0.09
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTTTATATTATAATTTATATTTTTATA
Found at i:108858896 original size:19 final size:18
Alignment explanation
Indices: 108858870--108858905 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
108858860 TAAAAGTTGA
108858870 AAATTTTCTAAGTTTTCG
1 AAATTTTCTAAGTTTTCG
*
108858888 AAATCTTTCTATGTTTTC
1 AAAT-TTTCTAAGTTTTC
108858906 AGATTGGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (18 bp):
AAATTTTCTAAGTTTTCG
Found at i:108859460 original size:33 final size:33
Alignment explanation
Indices: 108859423--108859490 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
108859413 AATTGTTATG
108859423 ATGAGTGTATAAACAACGTTATGGTTTATAAGA
1 ATGAGTGTATAAACAACGTTATGGTTTATAAGA
* *
108859456 ATGAGTGTATGAACAACGTTATGGTTTATGAGA
1 ATGAGTGTATAAACAACGTTATGGTTTATAAGA
108859489 AT
1 AT
108859491 AACATTGTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.34
Consensus pattern (33 bp):
ATGAGTGTATAAACAACGTTATGGTTTATAAGA
Found at i:108860560 original size:40 final size:40
Alignment explanation
Indices: 108860426--108860562 Score: 184
Period size: 41 Copynumber: 3.4 Consensus size: 40
108860416 GCGTTTGAAA
* * *
108860426 CAAAACGCTGCTAAAAACTGAGCAATAGTGGCGTTTTTATC
1 CAAAACGCCGCAAAAAACTGAGAAATAGTGGCG-TTTTATC
* *
108860467 CAAAACGCCGCTAAAAACTGAGTAATAGTGGCGTTTTCATC
1 CAAAACGCCGCAAAAAACTGAGAAATAGTGGCGTTTT-ATC
** *
108860508 CAAAACTACGCAAAAAACTGAGAAATAGTGGCGTTTTATT
1 CAAAACGCCGCAAAAAACTGAGAAATAGTGGCGTTTTATC
108860548 CAAAACGCCGCAAAA
1 CAAAACGCCGCAAAA
108860563 CGCCGCAAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 19 0.22
41 67 0.78
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (40 bp):
CAAAACGCCGCAAAAAACTGAGAAATAGTGGCGTTTTATC
Found at i:108860563 original size:10 final size:10
Alignment explanation
Indices: 108860548--108860572 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
108860538 GCGTTTTATT
108860548 CAAAACGCCG
1 CAAAACGCCG
108860558 CAAAACGCCG
1 CAAAACGCCG
108860568 CAAAA
1 CAAAA
108860573 AACTGAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.36, G:0.16, T:0.00
Consensus pattern (10 bp):
CAAAACGCCG
Found at i:108860613 original size:51 final size:50
Alignment explanation
Indices: 108860516--108860613 Score: 142
Period size: 50 Copynumber: 1.9 Consensus size: 50
108860506 TCCAAAACTA
* * *
108860516 CGCAAAAAACTGAGAAATAGTGGCGTTTTATTCAAAACGCCGCAAAACGC
1 CGCAAAAAACTGAGAAATAATGGCGCTTTATTCAAAACGCCACAAAACGC
* *
108860566 CGCAAAAAACTGAGATATAATGGCGCTTTAGTTCCAAACGCCACAAAA
1 CGCAAAAAACTGAGAAATAATGGCGCTTTA-TTCAAAACGCCACAAAA
108860614 GGTTGAGCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 27 0.64
51 15 0.36
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.18
Consensus pattern (50 bp):
CGCAAAAAACTGAGAAATAATGGCGCTTTATTCAAAACGCCACAAAACGC
Found at i:108861410 original size:14 final size:15
Alignment explanation
Indices: 108861391--108861427 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
108861381 AAACCTTTAT
108861391 ACCTTAAA-TTATAA
1 ACCTTAAATTTATAA
*
108861405 ACCTTAAATTTGTAA
1 ACCTTAAATTTATAA
108861420 ACCTTAAA
1 ACCTTAAA
108861428 AATAAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (15 bp):
ACCTTAAATTTATAA
Found at i:108862553 original size:20 final size:20
Alignment explanation
Indices: 108862508--108862559 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
108862498 CCCCACCCAA
*
108862508 ATTTCCCCAAATCCCTAACT
1 ATTTCCCCAAATCCCTAAAT
*
108862528 -TTTCCCCTAATCCCTAAAT
1 ATTTCCCCAAATCCCTAAAT
108862547 ATTTCCCCAAATC
1 ATTTCCCCAAATC
108862560 AAAATCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTTCCCCAAATCCCTAAAT
Found at i:108866157 original size:21 final size:21
Alignment explanation
Indices: 108866131--108866172 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
108866121 CAACTTAGAA
*
108866131 CGGAGGCAGCAGCAAGGGAGG
1 CGGAGGCAACAGCAAGGGAGG
*
108866152 CGGAGGCAACAGCGAGGGAGG
1 CGGAGGCAACAGCAAGGGAGG
108866173 TAGAGCAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.19, G:0.52, T:0.00
Consensus pattern (21 bp):
CGGAGGCAACAGCAAGGGAGG
Found at i:108870497 original size:80 final size:80
Alignment explanation
Indices: 108870353--108870529 Score: 228
Period size: 80 Copynumber: 2.2 Consensus size: 80
108870343 TGTGGACAAC
* * * *
108870353 CAAATAATCTACCAGTATTGTGGTCAAACCACCAGTATTGCATATAAACTACCAATATTATGGAC
1 CAAATAAACTGCCAGTATTGTGGACAAACCACCAGTATTGCAGATAAACTACCAATATTATGGAC
*
108870418 TAGCCACCAGTATTG
66 AAGCCACCAGTATTG
* * * * ** *
108870433 CAGATAAATTGCCAGTATTGTGGACAAGCCACCCGTATTGCAGATAAACTGTCAATATTGTGGAC
1 CAAATAAACTGCCAGTATTGTGGACAAACCACCAGTATTGCAGATAAACTACCAATATTATGGAC
*
108870498 AAGCCACTAGTATTG
66 AAGCCACCAGTATTG
*
108870513 CAAATAAACTGTCAGTA
1 CAAATAAACTGCCAGTA
108870530 CTTCCTCCTT
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (80 bp):
CAAATAAACTGCCAGTATTGTGGACAAACCACCAGTATTGCAGATAAACTACCAATATTATGGAC
AAGCCACCAGTATTG
Found at i:108870526 original size:40 final size:40
Alignment explanation
Indices: 108870368--108870523 Score: 204
Period size: 40 Copynumber: 3.9 Consensus size: 40
108870358 AATCTACCAG
* * * *
108870368 TATTGTGGTCAAACCACCAGTATTGCATATAAACTACCAA
1 TATTGTGGACAAGCCACCAGTATTGCAGATAAACTGCCAA
* * * *
108870408 TATTATGGACTAGCCACCAGTATTGCAGATAAATTGCCAG
1 TATTGTGGACAAGCCACCAGTATTGCAGATAAACTGCCAA
* *
108870448 TATTGTGGACAAGCCACCCGTATTGCAGATAAACTGTCAA
1 TATTGTGGACAAGCCACCAGTATTGCAGATAAACTGCCAA
* *
108870488 TATTGTGGACAAGCCACTAGTATTGCAAATAAACTG
1 TATTGTGGACAAGCCACCAGTATTGCAGATAAACTG
108870524 TCAGTACTTC
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (40 bp):
TATTGTGGACAAGCCACCAGTATTGCAGATAAACTGCCAA
Found at i:108875236 original size:7 final size:7
Alignment explanation
Indices: 108875224--108875265 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
108875214 ATATTTAAAA
108875224 TTCATAT
1 TTCATAT
108875231 TTCATAT
1 TTCATAT
108875238 TTCATAT
1 TTCATAT
108875245 TTCATAT
1 TTCATAT
108875252 TTCATAT
1 TTCATAT
108875259 TTCATAT
1 TTCATAT
108875266 ATTAAAATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTCATAT
Found at i:108877155 original size:17 final size:18
Alignment explanation
Indices: 108877132--108877182 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
108877122 CCATTAAGCC
108877132 CCCCAAAAAAAAACCTAA
1 CCCCAAAAAAAAACCTAA
*
108877150 CCCAAAAAAAAAACCTAA
1 CCCCAAAAAAAAACCTAA
*
108877168 CCCCCAAAAAAAACC
1 CCCCAAAAAAAAACC
108877183 AAAAAACCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.61, C:0.35, G:0.00, T:0.04
Consensus pattern (18 bp):
CCCCAAAAAAAAACCTAA
Found at i:108877501 original size:17 final size:17
Alignment explanation
Indices: 108877479--108877517 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
108877469 CCTAAAGGTG
*
108877479 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTT-TT
108877496 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
108877513 ATTTT
1 ATTTT
108877518 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:108877587 original size:13 final size:13
Alignment explanation
Indices: 108877569--108877623 Score: 56
Period size: 13 Copynumber: 4.0 Consensus size: 13
108877559 TATATACATC
108877569 ATAATAAAAAAAT
1 ATAATAAAAAAAT
*
108877582 ATAATAAAAATAT
1 ATAATAAAAAAAT
*
108877595 ATATACAAAACAAAT
1 ATA-ATAAAA-AAAT
*
108877610 ATTAAAAAAAAAAT
1 A-TAATAAAAAAAT
108877624 TACCTTTTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 15 0.43
14 9 0.26
15 9 0.26
16 2 0.06
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
ATAATAAAAAAAT
Found at i:108878230 original size:11 final size:11
Alignment explanation
Indices: 108878206--108878250 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
108878196 TTCTAATACG
*
108878206 TATATATATTA
1 TATATATTTTA
*
108878217 TATGTATTTTA
1 TATATATTTTA
108878228 TATATATTATGTA
1 TATATATT-T-TA
108878241 TATATATTTT
1 TATATATTTT
108878251 TTTAATGCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 17 0.59
12 2 0.07
13 10 0.34
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATTTTA
Found at i:108878341 original size:24 final size:25
Alignment explanation
Indices: 108878309--108878371 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
108878299 TTATATCATC
* * *
108878309 TTATGTATATATTCTTAAATAC-TA
1 TTATATATATATACATAAATACATA
* *
108878333 TTATATATACATACATACATACATA
1 TTATATATATATACATAAATACATA
108878358 TATATATATATATA
1 T-TATATATATATA
108878372 TTAAAATACC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 17 0.55
25 3 0.10
26 11 0.35
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (25 bp):
TTATATATATATACATAAATACATA
Found at i:108883077 original size:13 final size:13
Alignment explanation
Indices: 108883059--108883083 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108883049 GTAAGTGATT
108883059 TTGATGATTTTTC
1 TTGATGATTTTTC
108883072 TTGATGATTTTT
1 TTGATGATTTTT
108883084 GCACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:108884083 original size:49 final size:49
Alignment explanation
Indices: 108884027--108884151 Score: 162
Period size: 49 Copynumber: 2.5 Consensus size: 49
108884017 TGTGGTGTGT
* * *
108884027 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATTAGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * *
108884076 CAGTGTAAGACCTGTTTGGGACATGGTATCGGCCTCGCTATATGAAAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCGATAGATGAAAGC
108884125 CAGTGTAAGACCATGTTTGGGACATGG
1 CAGTGTAAGACC-TGTTTGGGACATGG
108884152 TGTCAACATC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 1 0.01
49 52 0.78
50 14 0.21
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:108886195 original size:21 final size:21
Alignment explanation
Indices: 108886140--108886197 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
108886130 CATGTATTAG
108886140 ATATTAAATAA-ATATTTATT
1 ATATTAAATAATATATTTATT
*
108886160 ATTTTATAA-AATATATTTATT
1 ATATTA-AATAATATATTTATT
108886181 A-ATTAAATAATTATATT
1 ATATTAAATAA-TATATT
108886198 ATAAGATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 2 0.06
20 12 0.38
21 18 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATTAAATAATATATTTATT
Found at i:108887772 original size:13 final size:13
Alignment explanation
Indices: 108887745--108887790 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
108887735 ATTGGATAAA
*
108887745 AATATAT-ATAAT
1 AATATATAAAAAT
108887757 AATATATAAAAAT
1 AATATATAAAAAT
108887770 AATATATAAATAGAT
1 AATATATAAA-A-AT
108887785 AATATA
1 AATATA
108887791 ATAATAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 7 0.23
13 14 0.47
14 1 0.03
15 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:108887774 original size:23 final size:22
Alignment explanation
Indices: 108887740--108887822 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 22
108887730 CAAAAATTGG
108887740 ATAAAAATATATATAATAATAT
1 ATAAAAATATATATAATAATAT
108887762 ATAAAAATAATATATAAATAGATAAT
1 ATAAAAAT-ATATAT-AATA-AT-AT
* * * *
108887788 ATAATAATAGATAGAATAATAAA
1 ATAAAAATATATATAATAAT-AT
108887811 ATAAATAATATA
1 ATAAA-AATATA
108887823 GAAATATAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
22 8 0.16
23 14 0.28
24 13 0.26
25 6 0.12
26 9 0.18
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
ATAAAAATATATATAATAATAT
Found at i:108887791 original size:13 final size:12
Alignment explanation
Indices: 108887740--108887820 Score: 64
Period size: 12 Copynumber: 6.8 Consensus size: 12
108887730 CAAAAATTGG
108887740 ATAAA-AAT-AT
1 ATAAATAATAAT
108887750 ATATAATAATATAT
1 ATA-AATAATA-AT
*
108887764 AAAAATAAT-AT
1 ATAAATAATAAT
108887775 ATAAATAGATAAT
1 ATAAATA-ATAAT
108887788 AT-AATAATAGAT
1 ATAAATAATA-AT
* *
108887800 A-GAATAATAAA
1 ATAAATAATAAT
108887811 ATAAATAATA
1 ATAAATAATA
108887821 TAGAAATATA
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
10 3 0.05
11 15 0.26
12 26 0.45
13 10 0.17
14 4 0.07
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:108887791 original size:20 final size:19
Alignment explanation
Indices: 108887750--108887862 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 19
108887740 ATAAAAATAT
*
108887750 ATATAATA-ATATATA-AA
1 ATATAATATATAAATAGAA
108887767 A-ATAATATATAAATAGATA
1 ATATAATATATAAATAGA-A
*
108887786 ATATAATA-ATAGATAGAATA
1 ATATAATATATAAATAG-A-A
* *
108887806 ATAAAATAAATAATATAGAA
1 ATATAATATATAA-ATAGAA
* *
108887826 ATATAGATTTATAAATCGAA
1 ATATA-ATATATAAATAGAA
*
108887846 ATATATTAATATAAATA
1 ATATAAT-ATATAAATA
108887863 TTGAAGAGTT
Statistics
Matches: 76, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
16 6 0.08
17 7 0.09
18 1 0.01
19 10 0.13
20 38 0.50
21 10 0.13
22 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (19 bp):
ATATAATATATAAATAGAA
Found at i:108887827 original size:15 final size:14
Alignment explanation
Indices: 108887754--108887828 Score: 62
Period size: 15 Copynumber: 5.0 Consensus size: 14
108887744 AAATATATAT
*
108887754 AATAATATATAA-A
1 AATAATATAAAATA
108887767 AATAATATATAAATA
1 AATAATATA-AAATA
*
108887782 GATAATATAATAATA
1 AATAATATAA-AATA
*
108887797 GATAGAATAATAAAATA
1 -A-ATAAT-ATAAAATA
108887814 AATAATATAGAAATA
1 AATAATATA-AAATA
108887829 TAGATTTATA
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
13 9 0.18
14 6 0.12
15 22 0.44
16 1 0.02
17 8 0.16
18 4 0.08
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (14 bp):
AATAATATAAAATA
Found at i:108891198 original size:15 final size:15
Alignment explanation
Indices: 108891178--108891208 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
108891168 TTGTATCAGT
108891178 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
108891193 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
108891208 A
1 A
108891209 TGGAACCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
AATGAATCAGAGCAC
Found at i:108891344 original size:15 final size:15
Alignment explanation
Indices: 108891324--108891382 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
108891314 ATACTTAGTA
*
108891324 TTAGATTAGTACTAG
1 TTAGATTAGTATTAG
108891339 TTAGATTAG-ATTAG
1 TTAGATTAGTATTAG
108891353 -T--ATTAG--TTAG
1 TTAGATTAGTATTAG
108891363 ATTAGATTAGTATTAG
1 -TTAGATTAGTATTAG
108891379 TTAG
1 TTAG
108891383 TGATCCCAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
10 4 0.11
11 5 0.14
12 1 0.03
13 1 0.03
14 9 0.24
15 13 0.35
16 4 0.11
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.44
Consensus pattern (15 bp):
TTAGATTAGTATTAG
Found at i:108891348 original size:20 final size:20
Alignment explanation
Indices: 108891318--108891382 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
108891308 CTTACGATAC
*
108891318 TTAGTATTAGATTAGTACTAG
1 TTAG-ATTAGATTAGTATTAG
108891339 TTAGATTAGATTAGTATTAG
1 TTAGATTAGATTAGTATTAG
108891359 TTAGATTAGATTAGTATTAG
1 TTAGATTAGATTAGTATTAG
108891379 TTAG
1 TTAG
108891383 TGATCCCAGC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
20 39 0.91
21 4 0.09
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.45
Consensus pattern (20 bp):
TTAGATTAGATTAGTATTAG
Found at i:108893719 original size:17 final size:17
Alignment explanation
Indices: 108893697--108893733 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
108893687 TGGGAGAAAG
108893697 TTTCCTGAATGAGTCTA
1 TTTCCTGAATGAGTCTA
108893714 TTTCCTGAATGAGTCTA
1 TTTCCTGAATGAGTCTA
108893731 TTT
1 TTT
108893734 TCAAGAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (17 bp):
TTTCCTGAATGAGTCTA
Found at i:108894879 original size:46 final size:46
Alignment explanation
Indices: 108894812--108895040 Score: 291
Period size: 46 Copynumber: 5.0 Consensus size: 46
108894802 GCTCTTTGAA
* * *
108894812 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
108894858 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
108894904 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
108894950 GA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 -ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
108894997 A-GAAAACGAGTAAAATCATAGTTGAAAGATACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
108895041 TCGAAGATAA
Statistics
Matches: 167, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 123 0.74
47 44 0.26
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:108895021 original size:93 final size:92
Alignment explanation
Indices: 108894826--108895040 Score: 263
Period size: 93 Copynumber: 2.3 Consensus size: 92
108894816 AATGTGTAAG
* * * **
108894826 ACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
1 ACCATAGTTGAAAGATACCATGGCAACATGAGATGAAATGAATAAGACCATGGTTGAAAGATACC
* * *
108894891 ATGACAACGTGACATGAAATGAATAAG
66 ATGACAACATGACATGAAACGAATAAA
*
108894918 ACCATGGTTGAAAGATACCATGGCAACATGACGA-GAAAATGAATAAGACCATGGTTGAAAGATA
1 ACCATAGTTGAAAGATACCATGGCAACATGA-GATG-AAATGAATAAGACCATGGTTGAAAGATA
* *
108894982 CCATGGCAACATGACA-GAAAACGAGTAAA
64 CCATGACAACATGACATG-AAACGAATAAA
* * *
108895011 ATCATAGTTGAAAGATACTATGGCATCATG
1 ACCATAGTTGAAAGATACCATGGCAACATG
108895041 TCGAAGATAA
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
92 32 0.30
93 75 0.70
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.20
Consensus pattern (92 bp):
ACCATAGTTGAAAGATACCATGGCAACATGAGATGAAATGAATAAGACCATGGTTGAAAGATACC
ATGACAACATGACATGAAACGAATAAA
Found at i:108903609 original size:417 final size:419
Alignment explanation
Indices: 108902815--108903650 Score: 1270
Period size: 417 Copynumber: 2.0 Consensus size: 419
108902805 TGGTATCATA
* *
108902815 TTAGATATATTACATTAAACTTGATTTTAAACCCCATCAGTTTTGTTATAGTTATTAAGTTTCAA
1 TTAGATATATTACATTAAACTTGAATTTAAACCCCATCACTTTTGTTATAGTTATTAAGTTTCAA
* * *
108902880 ACTTCAATCAAGTACAACAAAAACCCTGTAACAATGTAACAACTTAGATGTAACTGATATTTTAG
66 ACTTCAATCAAGTACAACAAAAACCCTGTAACAATCTAAAAACTTAGATGCAACTGATATTTTAG
* *
108902945 TCTCTCTTTTATTTTCGCCTCAAGTATTATAGACAAATCGAAAAGAAATGACATAATAACTTATT
131 TCTCTCTTTTATTTTCACATCAAGTATTATAGACAAATCGAAAAGAAATGACATAATAACTTATT
* * * * * *
108903010 TGGCTCTTTAACGTTATAAAAAAATCATTTTATCCTTTTATTTAATTTTTTGCATATGTAGTTCT
196 AGGCTATCTAACATTATAAAAAAATCATTTTATCCCTTTATTTAATTTTTTACATATGTAGTTCT
*
108903075 TAAACTTGTATTGTTTATAAAATCAACCTAAAATAGATGAAAAGGTTAAAAGTTAATTAACTTTT
261 TAAACTTGTATTGTTTATAAAATCAACCTAAAATAGATGAAAAAGTTAAAAGTTAATTAACTTTT
*
108903140 CTACATGACAACCGACTTAGAAGTCCACGTGTATGTCATGTTAAAAATTAATTAATTTTTTAAAA
326 CTACAAGACAACCGACTTAGAAGTCCACGTGTATGTCATGTTAAAAATTAATTAATTTTTTAAAA
108903205 ATAAAAAGTA-TT-AAAAAATTCATAATG
391 ATAAAAAGTATTTAAAAAAATTCATAATG
* * * *
108903232 TTAGATATATTACATTAAACTTGAATTTAAACTCCATCACTTTTGTTGTATTTATTATGTTTCAA
1 TTAGATATATTACATTAAACTTGAATTTAAACCCCATCACTTTTGTTATAGTTATTAAGTTTCAA
* * *
108903297 ACTTCAATTAAGTACAACAAAAACCTTGTAACAA-CTAAGAAATTTAGATGCAACTGAT-TTTTA
66 ACTTCAATCAAGTACAACAAAAACCCTGTAACAATCTAA-AAACTTAGATGCAACTGATATTTTA
* *
108903360 GTCTCTCTTTTATTTTCATAT-AAGTATTATAGACAAATCGAAAATAAATGACATAATAACTTAT
130 GTCTCTCTTTTATTTTCACATCAAGTATTATAGACAAATCGAAAAGAAATGACATAATAACTTAT
* *
108903424 TAGGCTATCTAACATTATAAAAAAAATTATTTTATCCCTTTATTTAATTTTTTACATCTGTAGTT
195 TAGGCTATCTAACATTAT-AAAAAAATCATTTTATCCCTTTATTTAATTTTTTACATATGTAGTT
* * *
108903489 TTTAAACTTGTATTGTTTATAAAATCAGCCTAAAATAGATGAAAAAGTTAAAAGTTGATTAACTT
259 CTTAAACTTGTATTGTTTATAAAATCAACCTAAAATAGATGAAAAAGTTAAAAGTTAATTAACTT
* * * *
108903554 TTTTGACAAGGCAACC-AGCTTGGAAGTCCATGTGTATGTCATGTTAAAAATTAATTAATTTTTT
324 TTCT-ACAAGACAACCGA-CTTAGAAGTCCACGTGTATGTCATGTTAAAAATTAATTAATTTTTT
* *
108903618 TAAAATAAAAATTATTTAAAAAAAATTCATAAT
387 AAAAATAAAAAGTATTT-AAAAAAATTCATAAT
108903651 TTTTAATTTT
Statistics
Matches: 377, Mismatches: 35, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
415 56 0.15
416 133 0.35
417 172 0.46
418 2 0.01
420 14 0.04
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (419 bp):
TTAGATATATTACATTAAACTTGAATTTAAACCCCATCACTTTTGTTATAGTTATTAAGTTTCAA
ACTTCAATCAAGTACAACAAAAACCCTGTAACAATCTAAAAACTTAGATGCAACTGATATTTTAG
TCTCTCTTTTATTTTCACATCAAGTATTATAGACAAATCGAAAAGAAATGACATAATAACTTATT
AGGCTATCTAACATTATAAAAAAATCATTTTATCCCTTTATTTAATTTTTTACATATGTAGTTCT
TAAACTTGTATTGTTTATAAAATCAACCTAAAATAGATGAAAAAGTTAAAAGTTAATTAACTTTT
CTACAAGACAACCGACTTAGAAGTCCACGTGTATGTCATGTTAAAAATTAATTAATTTTTTAAAA
ATAAAAAGTATTTAAAAAAATTCATAATG
Found at i:108910795 original size:15 final size:14
Alignment explanation
Indices: 108910775--108910805 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
108910765 GAGACTACAC
108910775 TTTTCTTTTTTTCTT
1 TTTTCTTTTTTT-TT
108910790 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
108910804 TT
1 TT
108910806 GCAAAATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:108911745 original size:43 final size:43
Alignment explanation
Indices: 108911555--108911733 Score: 261
Period size: 43 Copynumber: 4.2 Consensus size: 43
108911545 AAAAATGCCA
* * **
108911555 CTAAAGACCATGACCTCTAGCGGCACTTTTTTCACAAACGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
* * *
108911598 CTAAAGACCATGA-CTTTCAGCGACGCTTTTCCCGCAAACACCG
1 CTAAAGACCATGACCTTT-AGCGGCGCTTTTCCCACAAACGCCG
*
108911641 CTAAAGACCATGACCTTTAGCGGCGCTTTTCCCGCAAACGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
*
108911684 CTAAAGACCATGACCTTTAGCGGCGCTTTTCTCACAAACGCCG
1 CTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
108911727 CTAAAGA
1 CTAAAGA
108911734 ATATAAGCTT
Statistics
Matches: 123, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 3 0.02
43 116 0.94
44 4 0.03
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (43 bp):
CTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
Found at i:108915821 original size:7 final size:7
Alignment explanation
Indices: 108915809--108915924 Score: 51
Period size: 7 Copynumber: 16.1 Consensus size: 7
108915799 ACTAATTAAT
108915809 CTAAACC
1 CTAAACC
108915816 CTAAACC
1 CTAAACC
*
108915823 TCTTAACC
1 -CTAAACC
*
108915831 CGT-ATCC
1 C-TAAACC
*
108915838 CATAAACA
1 C-TAAACC
*
108915846 TTAAACC
1 CTAAACC
108915853 CTTAAACC
1 C-TAAACC
108915861 CTAAACC
1 CTAAACC
*
108915868 CTTACACC
1 C-TAAACC
*
108915876 TTAAACTC
1 CTAAAC-C
108915884 C--AACC
1 CTAAACC
108915889 CT-AACC
1 CTAAACC
108915895 CTTAAACC
1 C-TAAACC
* *
108915903 TTAAATC
1 CTAAACC
* *
108915910 ATAATCC
1 CTAAACC
108915917 CTAAACC
1 CTAAACC
108915924 C
1 C
108915925 ATAATTGTTA
Statistics
Matches: 81, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
5 2 0.02
6 8 0.10
7 45 0.56
8 26 0.32
ACGTcount: A:0.38, C:0.38, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:108915865 original size:15 final size:15
Alignment explanation
Indices: 108915810--108915907 Score: 64
Period size: 15 Copynumber: 6.7 Consensus size: 15
108915800 CTAATTAATC
108915810 TAAACCCTAAACCTCT
1 TAAACCCTAAACC-CT
* *
108915826 T-AACCCGT-ATCCCA
1 TAAACCC-TAAACCCT
**
108915840 TAAACATTAAACCCT
1 TAAACCCTAAACCCT
108915855 TAAACCCTAAACCCT
1 TAAACCCTAAACCCT
* *
108915870 TACACCTTAAACTCC-
1 TAAACCCTAAAC-CCT
108915885 --AACCCT-AACCCT
1 TAAACCCTAAACCCT
*
108915897 TAAACCTTAAA
1 TAAACCCTAAA
108915908 TCATAATCCC
Statistics
Matches: 61, Mismatches: 13, Indels: 17
0.67 0.14 0.19
Matches are distributed among these distances:
11 2 0.03
12 3 0.05
13 4 0.07
14 8 0.13
15 40 0.66
16 4 0.07
ACGTcount: A:0.39, C:0.37, G:0.01, T:0.23
Consensus pattern (15 bp):
TAAACCCTAAACCCT
Found at i:108916044 original size:41 final size:40
Alignment explanation
Indices: 108915987--108916107 Score: 172
Period size: 41 Copynumber: 3.0 Consensus size: 40
108915977 TTATATGACT
108915987 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GTC
*
108916028 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTC
* * *
108916068 TTTAGCGGCGTTTTTTACTAAAA-AGCCGCTATTGCTCTGT
1 TTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTGT
108916108 GTTTTACAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
40 12 0.16
41 52 0.70
42 10 0.14
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (40 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGTC
Found at i:108916152 original size:12 final size:12
Alignment explanation
Indices: 108916137--108916174 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
108916127 GTTTTTTGAT
108916137 AAAACGCCGCTA
1 AAAACGCCGCTA
*
108916149 AAAATGCCGCTA
1 AAAACGCCGCTA
108916161 AAAACGCCGCTA
1 AAAACGCCGCTA
108916173 AA
1 AA
108916175 GCCCTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.45, C:0.29, G:0.16, T:0.11
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:108917260 original size:19 final size:20
Alignment explanation
Indices: 108917235--108917306 Score: 94
Period size: 19 Copynumber: 3.7 Consensus size: 20
108917225 AATTACAGAA
108917235 AAAAATTT-AAAATAATTAT
1 AAAAATTTCAAAATAATTAT
* *
108917254 CAAAATTTCAAAATAATTTT
1 AAAAATTTCAAAATAATTAT
* *
108917274 TAAAA-TTCAAAATATTTAT
1 AAAAATTTCAAAATAATTAT
108917293 AAAAATTTCAAAAT
1 AAAAATTTCAAAAT
108917307 TTATATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
19 23 0.51
20 22 0.49
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTTCAAAATAATTAT
Found at i:108917279 original size:39 final size:41
Alignment explanation
Indices: 108917236--108917320 Score: 120
Period size: 39 Copynumber: 2.1 Consensus size: 41
108917226 ATTACAGAAA
* *
108917236 AAAATTTAAAATAATTATCAAAATTTCAAAA-TA-ATTTTT
1 AAAATTCAAAATAATTATAAAAATTTCAAAATTATATTTTT
*
108917275 AAAATTCAAAATATTTATAAAAATTTCAAAATTTATATTTTT
1 AAAATTCAAAATAATTATAAAAATTTCAAAA-TTATATTTTT
108917317 AAAA
1 AAAA
108917321 AAATTAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
39 28 0.70
41 2 0.05
42 10 0.25
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (41 bp):
AAAATTCAAAATAATTATAAAAATTTCAAAATTATATTTTT
Found at i:108923097 original size:47 final size:47
Alignment explanation
Indices: 108923026--108923438 Score: 619
Period size: 47 Copynumber: 8.7 Consensus size: 47
108923016 CCCTTTGGGA
* * * * * *
108923026 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
108923073 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
108923120 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
108923167 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
108923214 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
108923261 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
108923308 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
108923357 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
108923406 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA--TATACACTTTCACATTCATC
108923439 GCGTAAAATC
Statistics
Matches: 346, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 233 0.67
49 113 0.33
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:108923129 original size:22 final size:22
Alignment explanation
Indices: 108923101--108923176 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
108923091 TTTCACATTC
108923101 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
108923123 ATCACATATATACACCTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
108923147 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
108923170 ATCACAT
1 ATCACAT
108923177 ATATACACCT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:108928204 original size:24 final size:24
Alignment explanation
Indices: 108928176--108928244 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
108928166 TTTTTAGAAG
* *
108928176 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
108928200 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
108928224 ATTTAGCATTTATTAGCATAA
1 ATTTAGCATTTATTAGCATAA
108928245 AATCTTAAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:108928231 original size:14 final size:14
Alignment explanation
Indices: 108928188--108928232 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
108928178 TTAGTATTTA
*
108928188 TTAGTATAATATAT
1 TTAGCATAATATAT
108928202 TTAGCAT--T-TA-
1 TTAGCATAATATAT
108928212 TTAGCATAATATAT
1 TTAGCATAATATAT
108928226 TTAGCAT
1 TTAGCAT
108928233 TTATTAGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 2 0.08
13 2 0.08
14 13 0.50
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (14 bp):
TTAGCATAATATAT
Found at i:108940541 original size:12 final size:12
Alignment explanation
Indices: 108940524--108940565 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
108940514 ATTGTCATAA
*
108940524 ATATTATTTTAT
1 ATATTATTATAT
108940536 ATATTATTATAT
1 ATATTATTATAT
108940548 ATATATATATATAT
1 ATAT-TAT-TATAT
108940562 ATAT
1 ATAT
108940566 ATGTACACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 15 0.56
13 3 0.11
14 9 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATATTATTATAT
Found at i:108940548 original size:2 final size:2
Alignment explanation
Indices: 108940533--108940567 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
108940523 AATATTATTT
108940533 TA TA TA T- TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108940568 GTACACTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:108944107 original size:24 final size:22
Alignment explanation
Indices: 108944065--108944113 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
108944055 ACACGTTAGC
108944065 AAACAAAATATATAAATATAAAT
1 AAACAAAATATATAAATAT-AAT
* *
108944088 AAACAAATATTTATATATATAAT
1 AAACAAA-ATATATAAATATAAT
108944111 AAA
1 AAA
108944114 ATATAAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AAACAAAATATATAAATATAAT
Found at i:108944132 original size:32 final size:28
Alignment explanation
Indices: 108944072--108944135 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 28
108944062 AGCAAACAAA
*
108944072 ATATATAAATATAAATAAACAAATATTT
1 ATATATAAATAAAAATAAACAAATATTT
*
108944100 ATATATATAATAAAATATAAATAGAATAATTT
1 ATATATA-AATAAAA-ATAAACA-AAT-ATTT
108944132 ATAT
1 ATAT
108944136 TTCAATTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 7 0.23
29 6 0.20
30 6 0.20
31 3 0.10
32 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
ATATATAAATAAAAATAAACAAATATTT
Found at i:108944297 original size:18 final size:18
Alignment explanation
Indices: 108944255--108944306 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
108944245 AACAAAAAAT
*
108944255 AAATATAAAAATTTTATA
1 AAATATAAAAATATTATA
108944273 AAATATAAAAATATTA-A
1 AAATATAAAAATATTATA
*
108944290 ATAT-TATAAAATATTAT
1 AAATATA-AAAATATTAT
108944307 TAACACACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 2 0.07
17 13 0.43
18 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATATAAAAATATTATA
Found at i:108948817 original size:14 final size:14
Alignment explanation
Indices: 108948793--108948840 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
108948783 AAATAAAAAC
108948793 ATATAATAATATAAA
1 ATAT-ATAATATAAA
*
108948808 TTATATAATATAAA
1 ATATATAATATAAA
*
108948822 ATATATAATATAAT
1 ATATATAATATAAA
108948836 ATATA
1 ATATA
108948841 AAACTATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 27 0.90
15 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATATAATATAAA
Found at i:108948818 original size:5 final size:5
Alignment explanation
Indices: 108948798--108948838 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
108948788 AAAACATATA
* *
108948798 ATAAT ATAA- ATTAT ATAAT ATAAA AT-AT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
108948839 TAAAACTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
4 6 0.20
5 24 0.80
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:108948985 original size:18 final size:19
Alignment explanation
Indices: 108948950--108949003 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
108948940 ACATATATGA
* *
108948950 ATATAATGAAATAAAT-A-
1 ATATAATAAAATATATAAC
108948967 ATATAATAAAAATATATAAC
1 ATATAAT-AAAATATATAAC
*
108948987 ATATAATAAAATCTATA
1 ATATAATAAAATATATA
108949004 TATATAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 10 0.32
20 7 0.23
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:108950871 original size:87 final size:85
Alignment explanation
Indices: 108950731--108951052 Score: 221
Period size: 87 Copynumber: 3.7 Consensus size: 85
108950721 ACAATACAGA
* * *
108950731 GATGCCAAATCATCTTAGATCTGCTTCAACAT-AAACA-CGTGAAAGCCAAATCTGCTGTGTCTT
1 GATGCCAAATCATCTTGGATCTGCTTC-A-ATGAAACATC-TGAAAGTCAAATCTGCTATGTCTT
108950794 AGATTTGCTCCTTGTGAACACAAG
63 -GATTTGCTCCTTGTGAACACAAG
* * *
108950818 GATGCCAAATCATCTTGGATCTGCTTCAATGAAATCATCTGAAGGTTAGATCTGCTATG---T-A
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAA-CATCTGAAAGTCAAATCTGCTATGTCTTGA
* * *
108950879 TCTGCT-CTCCGTCGAA-A-TAG
65 TTTGCTCCT-TGT-GAACACAAG
* * *** * *
108950899 AGATGCCAGATCTGTTATCTTGGATGTGCGTTGGTGTGGGAACATCCGAAAGTCAAATCTGCTAT
1 -GATGCCAAATC----ATCTTGGATCTGC-TT-CAAT-GAAACATCTGAAAGTCAAATCTGCTAT
* *
108950964 GTCTTCGATTTGTTCCTTGTAAACACAAG
58 GTCTT-GATTTGCTCCTTGTGAACACAAG
* * * * *
108950993 GATGCCAAATCATCTTGGATCTGCTCCAGTGAAATCATCTGAAGGTTAGATCTGCTATGT
1 GATGCCAAATCATCTTGGATCTGCTTCAATGAAA-CATCTGAAAGTCAAATCTGCTATGT
108951053 ATCTGCTCTC
Statistics
Matches: 179, Mismatches: 34, Indels: 44
0.70 0.13 0.17
Matches are distributed among these distances:
81 4 0.02
82 19 0.11
83 3 0.02
84 1 0.01
85 2 0.01
86 19 0.11
87 68 0.38
88 23 0.13
89 15 0.08
91 1 0.01
92 2 0.01
93 18 0.10
94 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (85 bp):
GATGCCAAATCATCTTGGATCTGCTTCAATGAAACATCTGAAAGTCAAATCTGCTATGTCTTGAT
TTGCTCCTTGTGAACACAAG
Found at i:108951068 original size:175 final size:175
Alignment explanation
Indices: 108950771--108951098 Score: 584
Period size: 175 Copynumber: 1.9 Consensus size: 175
108950761 ATAAACACGT
* *
108950771 GAAAGCCAAATCTGCTGTGTCTTAGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCTGCTATGTCTTAGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
*
108950836 ATCTGCTTCAATGAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAG
66 ATCTGCTCCAATGAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAG
108950901 ATGCCAGATCTGTTATCTTGGATGTGCGTTGGTGTGGGAACATCC
131 ATGCCAGATCTGTTATCTTGGATGTGCGTTGGTGTGGGAACATCC
* * *
108950946 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCTGCTATGTCTTAGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
* *
108951011 ATCTGCTCCAGTGAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTCCAATGAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAG
108951076 ATGCCAGATCTGTTATCTTGGAT
131 ATGCCAGATCTGTTATCTTGGAT
108951099 CTGCTTCAGT
Statistics
Matches: 145, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 145 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (175 bp):
GAAAGCCAAATCTGCTATGTCTTAGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGG
ATCTGCTCCAATGAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATAGAG
ATGCCAGATCTGTTATCTTGGATGTGCGTTGGTGTGGGAACATCC
Found at i:108962236 original size:39 final size:38
Alignment explanation
Indices: 108962193--108962308 Score: 187
Period size: 39 Copynumber: 3.0 Consensus size: 38
108962183 CAGGACATAT
*
108962193 TTCCAGCACGTAGCCTGCGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACC-TAAGTCCGGATATAA
108962232 TTCCAGCACATAGCCTGCGGATCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGA-CCTAAGTCCGGATATAA
*
108962271 TTTCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCGGA-CCTAAGTCCGGATATA
108962309 CATCACTGAA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
39 71 0.97
40 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (38 bp):
TTCCAGCACATAGCCTGCGGACCTAAGTCCGGATATAA
Found at i:108966653 original size:22 final size:20
Alignment explanation
Indices: 108966628--108966679 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
108966618 AAATAAAAAC
*
108966628 ATATAATAATATAAATTATATA
1 ATATAA-AA-ATAAATAATATA
*
108966650 ATATAAAAATATATAATATA
1 ATATAAAAATAAATAATATA
108966670 ATATATAAAA
1 ATATA-AAAA
108966680 CTATTATGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 15 0.56
21 6 0.22
22 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATAAAAATAAATAATATA
Found at i:108966662 original size:15 final size:15
Alignment explanation
Indices: 108966620--108966670 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
108966610 TAATTTACAA
*
108966620 ATAAAAACATATAAT
1 ATAAAAATATATAAT
*
108966635 AATATAAATTATATAAT
1 -ATA-AAAATATATAAT
108966652 ATAAAAATATATAAT
1 ATAAAAATATATAAT
108966667 ATAA
1 ATAA
108966671 TATATAAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 15 0.48
16 6 0.19
17 10 0.32
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAAAATATATAAT
Found at i:108966821 original size:18 final size:19
Alignment explanation
Indices: 108966786--108966839 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
108966776 ACATATATGA
* *
108966786 ATATAATGAAATAAAT-A-
1 ATATAATAAAATATATAAC
108966803 ATATAATAAAAATATATAAC
1 ATATAAT-AAAATATATAAC
*
108966823 ATATAATAAAATCTATA
1 ATATAATAAAATATATA
108966840 TATATAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
19 10 0.32
20 7 0.23
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:108972466 original size:27 final size:27
Alignment explanation
Indices: 108972435--108972487 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
108972425 ATTTAACCTT
*
108972435 CATAGTAGAGTCAACAGTATAAGTTTC
1 CATAGTAGAGTCAACAGTACAAGTTTC
*
108972462 CATAGTAGAGTCAATAGTACAAGTTT
1 CATAGTAGAGTCAACAGTACAAGTTT
108972488 TCTTCACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (27 bp):
CATAGTAGAGTCAACAGTACAAGTTTC
Found at i:108972914 original size:38 final size:38
Alignment explanation
Indices: 108972864--108972941 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
108972854 ATAATTTCAA
108972864 CAACACTAGAGAATATTTAAGCACAACTTATTCACACT
1 CAACACTAGAGAATATTTAAGCACAACTTATTCACACT
108972902 CAACACTAGAGAATATTTAAGCACAACTTATTCACACT
1 CAACACTAGAGAATATTTAAGCACAACTTATTCACACT
108972940 CA
1 CA
108972942 TTACAACTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (38 bp):
CAACACTAGAGAATATTTAAGCACAACTTATTCACACT
Found at i:108974031 original size:2 final size:2
Alignment explanation
Indices: 108974026--108974070 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
108974016 AACACACGTT
108974026 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108974068 TA T
1 TA T
108974071 TCTAAATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:108974511 original size:15 final size:16
Alignment explanation
Indices: 108974472--108974519 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
108974462 AATATTTTAT
*
108974472 TTTATATAATTTATAA
1 TTTATAAAATTTATAA
**
108974488 TACATAAAATTTA-AA
1 TTTATAAAATTTATAA
*
108974503 TTTATAAAATATATAA
1 TTTATAAAATTTATAA
108974519 T
1 T
108974520 ACTACTATGA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTATAAAATTTATAA
Found at i:108974553 original size:33 final size:32
Alignment explanation
Indices: 108974499--108974580 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 32
108974489 ACATAAAATT
* *
108974499 TAAATTTATAAAATATATAATA-CTACTATGATA
1 TAAAATTATAAAAAATATAATATC-ACTAT-ATA
*
108974532 TAAACATTA-AAAAAATATAATATCGCTATATA
1 TAAA-ATTATAAAAAATATAATATCACTATATA
108974564 TAAAATTATAAAAAATA
1 TAAAATTATAAAAAATA
108974581 AAAATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 4 0.09
32 15 0.35
33 20 0.47
34 4 0.09
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (32 bp):
TAAAATTATAAAAAATATAATATCACTATATA
Found at i:108974602 original size:17 final size:16
Alignment explanation
Indices: 108974564--108974624 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
108974554 TCGCTATATA
* *
108974564 TAAAATTATA-AAAAA
1 TAAAAATATATAAAAT
108974579 TAAAAATATATAAAAT
1 TAAAAATATATAAAAT
108974595 TAATAAATAT-TAAAAT
1 TAA-AAATATATAAAAT
*
108974611 AAAATAAT-TATAAA
1 TAAA-AATATATAAA
108974625 TATATTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 11 0.28
16 22 0.56
17 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAAATATATAAAAT
Found at i:108974609 original size:25 final size:24
Alignment explanation
Indices: 108974559--108974628 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
108974549 TAATATCGCT
*
108974559 ATATATAAAATTATAAAAAATAAAA
1 ATATATAAAATTAT-AAATATAAAA
*
108974584 ATATATAAAATTAATAAATATTAAA
1 ATATATAAAATT-ATAAATATAAAA
108974609 ATA-A-AATAATTATAAATATA
1 ATATATAA-AATTATAAATATA
108974629 TTTTTAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 10 0.25
24 5 0.12
25 23 0.57
26 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
ATATATAAAATTATAAATATAAAA
Found at i:108974610 original size:8 final size:9
Alignment explanation
Indices: 108974559--108974611 Score: 53
Period size: 8 Copynumber: 6.3 Consensus size: 9
108974549 TAATATCGCT
108974559 ATATATAAA
1 ATATATAAA
108974568 AT-TATAAA
1 ATATATAAA
*
108974576 AAATA-AAA
1 ATATATAAA
108974584 ATATATAAA
1 ATATATAAA
108974593 AT-TA-ATAA
1 ATATATA-AA
108974601 ATAT-TAAA
1 ATATATAAA
108974609 ATA
1 ATA
108974612 AAATAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
7 1 0.03
8 25 0.68
9 11 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATATATAAA
Found at i:108975415 original size:22 final size:23
Alignment explanation
Indices: 108975375--108975424 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
108975365 TATAATGACG
108975375 GAAAAATATAATTATTTTATAAA-
1 GAAAAATATAATTATTTTA-AAAT
*
108975398 GAAAAATGTAATTA-TTTAAAAT
1 GAAAAATATAATTATTTTAAAAT
108975420 GAAAA
1 GAAAA
108975425 TTTTACACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 3 0.12
22 9 0.36
23 13 0.52
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (23 bp):
GAAAAATATAATTATTTTAAAAT
Found at i:108977156 original size:61 final size:60
Alignment explanation
Indices: 108977064--108977256 Score: 147
Period size: 62 Copynumber: 3.1 Consensus size: 60
108977054 AAATTAATTA
* ** *
108977064 TAAACCCTTATTACCATCTTTAACCTTAAAATCAAACCCTAAACCCAAAAATCATTAAACTT
1 TAAACCC-CATTACCATCCCTAACCTCAAAATCAAACCCTAAACCC-AAAATCATTAAACTT
* * *
108977126 TAAACCCCATTACCATCCCTAAACTCAAAATC-AACATCTAAATCCCAAAATCATTGAA-TCT
1 TAAACCCCATTACCATCCCTAACCTCAAAATCAAAC-CCTAAA-CCCAAAATCATTAAACT-T
* ** * * * * * * *
108977187 TAAATCCCTATTATGATTCCTAACCCCAAAATCAAACCTTAAATTCTAAAATCAATAAACAT
1 TAAA-CCCCATTACCATCCCTAACCTCAAAATCAAACCCTAAA-CCCAAAATCATTAAACTT
*
108977249 TAAGCCCC
1 TAAACCCC
108977257 CTTCATCATC
Statistics
Matches: 103, Mismatches: 22, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
60 4 0.04
61 44 0.43
62 52 0.50
63 3 0.03
ACGTcount: A:0.43, C:0.28, G:0.02, T:0.27
Consensus pattern (60 bp):
TAAACCCCATTACCATCCCTAACCTCAAAATCAAACCCTAAACCCAAAATCATTAAACTT
Found at i:108977230 original size:62 final size:61
Alignment explanation
Indices: 108977091--108977256 Score: 149
Period size: 62 Copynumber: 2.7 Consensus size: 61
108977081 CTTTAACCTT
* *
108977091 AAAATCAAACCCTAAA-CCCAAAAATCATTAAACTTTAAACCCCATTACCATCCCTAAACTC
1 AAAATCAAACCTTAAATCCC-AAAATCATTAAACTTTAAACCCCATTACCATCCCTAAACCC
* * * ** * *
108977152 AAAATC-AACATCTAAATCCCAAAATCATTGAA-TCTTAAATCCCTATTATGATTCCTAACCCC
1 AAAATCAAACCT-TAAATCCCAAAATCATTAAACT-TTAAA-CCCCATTACCATCCCTAAACCC
* * * * *
108977214 AAAATCAAACCTTAAATTCTAAAATCAATAAACATTAAGCCCC
1 AAAATCAAACCTTAAATCCCAAAATCATTAAACTTTAAACCCC
108977257 CTTCATCATC
Statistics
Matches: 82, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
60 4 0.05
61 29 0.35
62 45 0.55
63 4 0.05
ACGTcount: A:0.45, C:0.28, G:0.02, T:0.25
Consensus pattern (61 bp):
AAAATCAAACCTTAAATCCCAAAATCATTAAACTTTAAACCCCATTACCATCCCTAAACCC
Found at i:108980344 original size:61 final size:61
Alignment explanation
Indices: 108980257--108980417 Score: 166
Period size: 61 Copynumber: 2.6 Consensus size: 61
108980247 GATAAAGAGG
* * * * *
108980257 GTTTAAGGTTTAATAAATTT-GAGGTTTGGGGTTTGATTTCGA-GGATAAGGATGATAAGAAG
1 GTTTAAGGTTTAAT-GATTTAGGGGTTTAGGGTTTGATTT-GAGGGATAAAGATGATAAGAAA
* * * * *
108980318 GTTTATA-GTTTAATGGTTTAGGGGTTTAAGGATTGATTTTAGGGATAAAGATGATAATAAA
1 GTTTA-AGGTTTAATGATTTAGGGGTTTAGGGTTTGATTTGAGGGATAAAGATGATAAGAAA
* *
108980379 GTTTAAGGTTTAATGATTTAGGGCTTTAGAGTTTGATTT
1 GTTTAAGGTTTAATGATTTAGGGGTTTAGGGTTTGATTT
108980418 TAAGGTTAAG
Statistics
Matches: 81, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
60 5 0.06
61 75 0.93
62 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.28, T:0.40
Consensus pattern (61 bp):
GTTTAAGGTTTAATGATTTAGGGGTTTAGGGTTTGATTTGAGGGATAAAGATGATAAGAAA
Found at i:108980853 original size:2 final size:2
Alignment explanation
Indices: 108980846--108980874 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
108980836 GAGTTAAGGT
108980846 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108980875 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108989954 original size:10 final size:10
Alignment explanation
Indices: 108989903--108989956 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
108989893 AATGTTATAG
108989903 AATATTTTTT
1 AATATTTTTT
108989913 AAT-TTTTTT
1 AATATTTTTT
108989922 AAATATTTTTAT
1 -AATATTTTT-T
108989934 AATA--TTTT
1 AATATTTTTT
*
108989942 AATATTTGTT
1 AATATTTTTT
108989952 AATAT
1 AATAT
108989957 GACATGTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
8 5 0.13
9 9 0.24
10 14 0.37
11 9 0.24
12 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
AATATTTTTT
Found at i:108990134 original size:16 final size:15
Alignment explanation
Indices: 108990092--108990148 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 15
108990082 TGGATAGTTA
108990092 AATTTAAC-AAAAAT
1 AATTTAACTAAAAAT
* *
108990106 AA-ATAAATAAAAACT
1 AATTTAACTAAAAA-T
108990121 AATTTAACTAAAAAAT
1 AATTTAACT-AAAAAT
108990137 AATTTAA-TAAAA
1 AATTTAACTAAAA
108990149 TATATAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 3 0.09
14 11 0.31
15 4 0.11
16 12 0.34
17 5 0.14
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
AATTTAACTAAAAAT
Found at i:108993991 original size:15 final size:15
Alignment explanation
Indices: 108993973--108994015 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
108993963 ATTTAAATAC
*
108993973 TAAAAATTTATGTGT
1 TAAAAATTTAAGTGT
*
108993988 TAAAAAATTAAGTGT
1 TAAAAATTTAAGTGT
* *
108994003 TGAAAATTCAAGT
1 TAAAAATTTAAGT
108994016 AAATTATAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.47, C:0.02, G:0.14, T:0.37
Consensus pattern (15 bp):
TAAAAATTTAAGTGT
Found at i:108994117 original size:15 final size:15
Alignment explanation
Indices: 108994093--108994122 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108994083 ATATAATTTT
*
108994093 AAAATTTTTAAAGGA
1 AAAATATTTAAAGGA
108994108 AAAATATTTAAAGGA
1 AAAATATTTAAAGGA
108994123 TAATCATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (15 bp):
AAAATATTTAAAGGA
Found at i:108996670 original size:64 final size:64
Alignment explanation
Indices: 108996589--108996772 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
108996579 AGACATTATG
* * *
108996589 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
108996653 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
108996718 AA
63 AA
* * * *
108996720 AT-TGGCTAGGTCACATGGGTGGTATTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
108996773 CAAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 33 0.34
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:108997841 original size:2 final size:2
Alignment explanation
Indices: 108997834--108997864 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
108997824 TCATGACATG
108997834 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108997865 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:109001584 original size:25 final size:25
Alignment explanation
Indices: 109001544--109001619 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
109001534 AAACAAATGA
* *
109001544 TATACAAAATATGCCATAAGGC-CT
1 TATACAGAATATGCCATAAGGCAAT
* *
109001568 TATTACAGAATACGCCACAAGGGCAAT
1 TA-TACAGAATATGCCATAA-GGCAAT
*
109001595 TATACAGAATTTGCCATAAGGCAAT
1 TATACAGAATATGCCATAAGGCAAT
109001620 CCATTCAGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
24 2 0.05
25 20 0.48
26 17 0.40
27 3 0.07
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
TATACAGAATATGCCATAAGGCAAT
Found at i:109001604 original size:26 final size:26
Alignment explanation
Indices: 109001571--109001666 Score: 77
Period size: 26 Copynumber: 3.7 Consensus size: 26
109001561 AAGGCCTTAT
*
109001571 TACAGAATACGCCACAAGGGCAAT-TA
1 TACAGAATACGCCACAA-GGCAATCCA
** *
109001597 TACAGAATTTGCCATAAGGCAATCCA
1 TACAGAATACGCCACAAGGCAATCCA
* * *
109001623 TTCAGAGTACGCCACAAAGGTAATCCA
1 TACAGAATACGCCAC-AAGGCAATCCA
** *
109001650 TTTAGAGTACGCCACAA
1 TACAGAATACGCCACAA
109001667 AGGTTAACAT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 6 0.11
26 27 0.47
27 24 0.42
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.20
Consensus pattern (26 bp):
TACAGAATACGCCACAAGGCAATCCA
Found at i:109001647 original size:27 final size:27
Alignment explanation
Indices: 109001612--109001670 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
109001602 AATTTGCCAT
*
109001612 AAGGCAATCCATTCAGAGTACGCCACA
1 AAGGTAATCCATTCAGAGTACGCCACA
*
109001639 AAGGTAATCCATTTAGAGTACGCCACA
1 AAGGTAATCCATTCAGAGTACGCCACA
109001666 AAGGT
1 AAGGT
109001671 TAACATGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (27 bp):
AAGGTAATCCATTCAGAGTACGCCACA
Found at i:109011125 original size:16 final size:17
Alignment explanation
Indices: 109011104--109011141 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
109011094 TATATGTATT
109011104 TTAAAGT-TAAAAAATA
1 TTAAAGTGTAAAAAATA
**
109011120 TTAAAGTGTTTAAAATA
1 TTAAAGTGTAAAAAATA
109011137 TTAAA
1 TTAAA
109011142 AGCATTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (17 bp):
TTAAAGTGTAAAAAATA
Found at i:109012626 original size:12 final size:13
Alignment explanation
Indices: 109012611--109012643 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
109012601 GCAAACGTGA
109012611 GAAAGAAAG-AAG
1 GAAAGAAAGAAAG
109012623 GAAAGAAAGAAAG
1 GAAAGAAAGAAAG
*
109012636 AAAAGAAA
1 GAAAGAAA
109012644 AGGGAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAG
Done.